General information for g17274.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein LST8-like protein.
Parent gene
- The parent gene g17274 is located on chr_4: 13006689..13007949 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_4 | g17274 | g17274.t2 | isoform | g17274.t2 | 13004517 | 13006689 |
| chr_4 | g17274 | g17274.t2 | exon | g17274.t2.exon1 | 13004517 | 13004839 |
| chr_4 | g17274 | g17274.t2 | exon | g17274.t2.exon2 | 13005568 | 13005752 |
| chr_4 | g17274 | g17274.t2 | cds | g17274.t2.CDS1 | 13005721 | 13005752 |
| chr_4 | g17274 | g17274.t2 | exon | g17274.t2.exon3 | 13006053 | 13006689 |
| chr_4 | g17274 | g17274.t2 | cds | g17274.t2.CDS2 | 13006053 | 13006689 |
| chr_4 | g17274 | g17274.t2 | TTS | g17274.t2 | 13006711 | 13006711 |
| chr_4 | g17274 | g17274.t2 | TSS | g17274.t2 | NA | NA |
Sequences
>g17274.t2 Gene=g17274 Length=1145
TTTTTATTGTTTTTTGCACTACTTTTATTAAAAGTTATTGATAATGAAATAAAAAATAAT
GATCACAATTGAAATTGCAAATTGTTTTCACTGAGAGTCAAAAAATTTGTAAAAAACTAT
CAAATTTTTTGTTAATTAATGAAGTTTTGCGACAAAGATCACATCGCTTTCTTTAATTTA
GAATTTTATCACAAACTTTCTACATCGAAACATTTAAATTGTTTATGTTTGATTTGTGAA
TATTTGGGTTTTTCTTCTCAAGTTTTAAGTTTGAGTTTAAAGGTTTTTTTACTTTTTTTA
AGTAAGGATCAGTAAAAATTTAGGTAAATGCACTAGTAATAAAAAATTATTTAGCTGCCG
GTGGATTTCAATCAATTCGTCTCTATGATTTGAATGCAAGTACAAATCCATTAATTAATT
TTGAAGGTGTCAGTAAAAATGTCACATCAGTTGGATTTCAAGAAGATGGAAGATTTATGT
ACACTGGATCAGAAGATTGCAGAGTTCGTATCTGGGACCTAAATTGTCCACAACCAGTTT
GTAAGCGAATGTTTGACTGCCTTACTCCAGTTGCATCAGTTTGTCTTCATCCAAATCAAG
TTGAAATTGCAATCAGTACAAGTGGTGGAAGTATTTATTTATGGGACATAAAGACAGACA
ATAATGAGCAACTTTTGCCTGAAATGAATGTTTCACTAAATAGCGTTGATATAAGTTCAA
ATGGAAAATATATGGCAGCAATAAATAATAAAGGAAGTTGCTACATTTGGGATTTAAAAT
CAGAAGGAAAACAATTGACAAAAACAAGTGCAAAAATTAAATTTGTCGCTCATCAACGTT
ATGGTTTGAAATGTAAATTTTCACCTGATTCACAACTTTTAGTCACAACAGGCGGGGATG
GTACTGCACGTATTTATAAATGTGAAGATGATTTTAAATTTTATAAAGAGCTGAAAATTG
AGAAATTTTGGATGTGGGATGTTGCATTTAGCAATGACAGTAAATATATTTTCATTTCAA
GCAGTGATGGATCAGCGAGATTGTGGAAAATTGAAACAAAAAGCATCGAAAGAGAATATT
TGGGACATTCAAAGGCTTTGACTGCAATTGCTTTTAGAGATGAATTTGTTAAAATTTCTA
ATTAA
>g17274.t2 Gene=g17274 Length=222
MYTGSEDCRVRIWDLNCPQPVCKRMFDCLTPVASVCLHPNQVEIAISTSGGSIYLWDIKT
DNNEQLLPEMNVSLNSVDISSNGKYMAAINNKGSCYIWDLKSEGKQLTKTSAKIKFVAHQ
RYGLKCKFSPDSQLLVTTGGDGTARIYKCEDDFKFYKELKIEKFWMWDVAFSNDSKYIFI
SSSDGSARLWKIETKSIEREYLGHSKALTAIAFRDEFVKISN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g17274.t2 | Gene3D | G3DSA:2.130.10.10 | - | 1 | 216 | 1.5E-64 |
| 4 | g17274.t2 | PANTHER | PTHR19842:SF0 | TARGET OF RAPAMYCIN COMPLEX SUBUNIT LST8 | 1 | 216 | 7.7E-63 |
| 5 | g17274.t2 | PANTHER | PTHR19842 | G BETA-LIKE PROTEIN GBL | 1 | 216 | 7.7E-63 |
| 1 | g17274.t2 | Pfam | PF07569 | TUP1-like enhancer of split | 65 | 113 | 2.4E-4 |
| 3 | g17274.t2 | Pfam | PF00400 | WD domain, G-beta repeat | 125 | 147 | 0.0056 |
| 2 | g17274.t2 | Pfam | PF00400 | WD domain, G-beta repeat | 167 | 191 | 0.0047 |
| 11 | g17274.t2 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 1 | 15 | - |
| 13 | g17274.t2 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 1 | 222 | 29.214 |
| 14 | g17274.t2 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 1 | 16 | 9.773 |
| 15 | g17274.t2 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 169 | 200 | 9.807 |
| 9 | g17274.t2 | SMART | SM00320 | WD40_4 | 19 | 57 | 1.8 |
| 8 | g17274.t2 | SMART | SM00320 | WD40_4 | 60 | 99 | 1.3 |
| 10 | g17274.t2 | SMART | SM00320 | WD40_4 | 109 | 148 | 7.5E-4 |
| 7 | g17274.t2 | SMART | SM00320 | WD40_4 | 152 | 191 | 0.0056 |
| 6 | g17274.t2 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 2 | 213 | 1.83E-42 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0031931 | TORC1 complex | CC |
| GO:0031929 | TOR signaling | BP |
| GO:0031932 | TORC2 complex | CC |
| GO:0005515 | protein binding | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed